beadarraySNP

The beadarraySNP software tool is an R/Bioconductor package that allows raw data from Illumina experiments to be read and stored in R classes. It enables users to choose different methods for image processing, background correction, and normalization for their analysis. Quality assessment can be performed on the raw data, and the summarized data can be stored in a format compatible with downstream analyses in other R/Bioconductor packages. The package can also process summarized data produced by Illumina's BeadStudio software.

Topic

Sequencing;DNA polymorphism;Sequence analysis

Detail

  • Operation: Copy number estimation

  • Software interface: Command-line user interface;Library

  • Language: R

  • License: GNU General Public License, version 2

  • Cost: Free

  • Version name: 1.64.0

  • Credit: MRC, CRUK, the Isaac Newton Trust

  • Input: -

  • Output: -

  • Contact: j.oosting@lumc.nl

  • Collection: -

  • Maturity: Mature

Publications

  • beadarray: R classes and methods for Illumina bead-based data.
  • Dunning MJ, et al. beadarray: R classes and methods for Illumina bead-based data. beadarray: R classes and methods for Illumina bead-based data. 2007; 23:2183-4. doi: 10.1093/bioinformatics/btm311
  • https://doi.org/10.1093/bioinformatics/btm311
  • PMID: 17586828
  • PMC: -

Download and documentation

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